Database and Motifs | High-scoring Motif Occurences | Debugging Information | Results in TSV Format | Results in GFF3 Format |
FIMO version 5.5.1, (Release date: Sun Jan 29 10:33:12 2023 -0800)
For further information on how to interpret these results please access https://meme-suite.org/meme/doc/fimo-output-format.html.
To get a copy of the FIMO software please access https://meme-suite.org
If you use FIMO in your research, please cite the following paper:
Charles E. Grant, Timothy L. Bailey, and William Stafford Noble,
"FIMO: Scanning for occurrences of a given motif",
Bioinformatics, 27(7):1017-1018, 2011.
[full text]
DATABASE test.fasta
Database contains 4123 sequences, 412200 residues
MOTIFS ./meme_out/meme.txt (DNA)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
CRRCGACGAKGBVGWGSSMAGCGATGAGGAGVAGMDSSGC | 40 | CGGCGACGATGCAGAGCGCAGCGATGAGGAGGAGCAGCGC |
TWCTNAYARDYWAADWYKWSAWSKWMACDWMYKHYWTWMASSAYARGCT | 49 | TTCTAACAATTAAATATTAGATGTAAACGAATTATATACAGGATAGGCT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | 29 | TAACACAAGACATCAAGACACGTTATATA |
Random model letter frequencies (--nrdb--):
A 0.282 C 0.222 G 0.229 T 0.267
Motif ID | Alt ID | Sequence Name | Strand | Start | End | p-value | q-value | Matched Sequence |
---|---|---|---|---|---|---|---|---|
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01872 | + | 14 | 42 | 6.02e-12 | 1.79e-06 | TAACACTAGGCATAAAGCCAAGTGATATA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00733 | + | 39 | 67 | 2.79e-11 | 4.13e-06 | TGTCGCTAGGCAGCTAGACCTGTGTTATA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00727 | + | 43 | 71 | 1.98e-10 | 1.96e-05 | TAACTGAAAACATCAACACTGCTTTTATA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00351 | + | 5 | 33 | 1.01e-09 | 6.5e-05 | TAGCTCAAGGTATATAGAAACCTTATAAT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03209 | + | 13 | 41 | 1.3e-09 | 6.5e-05 | TGACTTTAGATAGGAAGACCAGTTAAACT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00674 | + | 64 | 92 | 1.31e-09 | 6.5e-05 | TACAACACAACAGCAAGACTCGTTAGAGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01484 | + | 20 | 48 | 5.9e-09 | 0.00025 | TGTCAGCAGACAACAGTATACGTTCTAAA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03752 | + | 36 | 64 | 3.67e-06 | 0.136 | TGACGCCAGTCGGATACCCCAGTGCTAAA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03991 | + | 59 | 87 | 1.16e-05 | 0.383 | TAGAGCTAGACATATATAAAACCTATGCA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00602 | + | 55 | 83 | 2.83e-05 | 0.838 | TGGATTAAGGTATAAACCTCGGTACTCTA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03170 | + | 32 | 60 | 6.72e-05 | 1 | TACCCCCCAACCACAGTCAAACTGCTAGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00970 | + | 32 | 60 | 7.01e-05 | 1 | TCTGTAAAGGCACCAATACATCTTCTACA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00840 | + | 23 | 51 | 0.000102 | 1 | TGTCATAAGACGTATTAAAACGTCTTATA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01409 | + | 51 | 79 | 0.000112 | 1 | GGCGACGATGCAGCAGGACCGGTGAGATT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03932 | + | 45 | 73 | 0.000115 | 1 | TATCAGAATATATGATCATATGTTCATTT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03399 | + | 4 | 32 | 0.000126 | 1 | TAACGCACGACCTGTAGATCACAATGAGT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00685 | + | 3 | 31 | 0.000166 | 1 | TATAGGCAAGGGACTGGACCCGTTTAAGC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00154 | + | 65 | 93 | 0.000168 | 1 | TGGCGTGCGACAGAGGGCTCTGTTCTACC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_04063 | + | 8 | 36 | 0.000169 | 1 | TAGCAGTAGAAGGGTGCAACGGTTAGGAT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02543 | + | 66 | 94 | 0.000201 | 1 | AGACACCAGACGGCCTTACAGCTTAAACT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00709 | + | 60 | 88 | 0.000208 | 1 | TGTCGCAAAATTACTAAACCCGTTAGGGG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01135 | + | 54 | 82 | 0.000208 | 1 | CGGTGCTAGATCTAACGACCAGTTTGAGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00876 | + | 67 | 95 | 0.000208 | 1 | TAACGGTAAAAAGCAGGGTCGGCTACAGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03256 | + | 70 | 98 | 0.000229 | 1 | TGTCGCACCGCAGATGCCCTACCTAGCGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03811 | + | 57 | 85 | 0.000244 | 1 | TACAGCCAAGCAGCGATAACACCCCAAAA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01630 | + | 15 | 43 | 0.000256 | 1 | GGACTCCATTCATCAGCTCATGTGCTAGT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02144 | + | 25 | 53 | 0.000283 | 1 | TGAAGACAGGGATCGGGACCGGTGCTACC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00721 | + | 29 | 57 | 0.000284 | 1 | TACCACTAGGCAAGTAGACCCTGGCACCG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00295 | + | 39 | 67 | 0.000285 | 1 | TACCGGCCAATATCAGGATACAGGTGTTT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01120 | + | 52 | 80 | 0.000308 | 1 | TGTCGCAAGCCTGGAGGCCCGCAGACACA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01561 | + | 2 | 30 | 0.000316 | 1 | TAGCGTCAGATGTGACGTACGGTGCAAAT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01709 | + | 53 | 81 | 0.000329 | 1 | TAACAGCAAACGAATGACTCCGGTTGACT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02750 | + | 56 | 84 | 0.000348 | 1 | TGGGCCTCGGTAGCTAGCCTACCGCTAAG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01043 | + | 24 | 52 | 0.000353 | 1 | TGGCGGCGGGTATGTACCCCGCTTGGCGT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01108 | + | 50 | 78 | 0.000382 | 1 | TTGAAGTAGGCATCTACCATGAAGTGACT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00825 | + | 23 | 51 | 0.000385 | 1 | TGGCATACGGCAAGAAGCGCGATCTCATA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00497 | + | 47 | 75 | 0.000391 | 1 | TGGCCGTGGTCAATTACACTGCTGTGACA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02951 | + | 71 | 99 | 0.000394 | 1 | TGACAGACAGCAAATGGAAAGGAGCGGCC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00714 | + | 35 | 63 | 0.000401 | 1 | CAGATGAGGACAAAACCATCCGTTACATT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01978 | + | 52 | 80 | 0.000401 | 1 | TAACGCCCAAGATCAGAACTTCTTTTCGG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00293 | + | 18 | 46 | 0.000421 | 1 | TGGAACAAAACTGAACCTGATGTTAGATT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01044 | + | 50 | 78 | 0.000442 | 1 | TGGAATAGAACATGTGCACAGTTACAACA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02489 | + | 29 | 57 | 0.000446 | 1 | TGACTGGAGGTGACAGTGTACGTACTACT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02223 | + | 15 | 43 | 0.000458 | 1 | TAGCTTTCGGCAAGCCCACGCCTATGAAA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00085 | + | 72 | 100 | 0.000466 | 1 | TGACGGAAAACACCGGGCGCCCTGAATCT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03044 | + | 68 | 96 | 0.000497 | 1 | TGCCACTAGGCATTTAGACCCCCAAACGC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02738 | + | 25 | 53 | 0.0005 | 1 | TGACGCAAAGGAGAGAGTCATGTATTAGG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02375 | + | 41 | 69 | 0.00053 | 1 | TCATTGACAGCATGTGTAATACTGTAACG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00029 | + | 9 | 37 | 0.000542 | 1 | TACATATATGCAAAAATAGCGCTAAGAGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03430 | + | 9 | 37 | 0.000557 | 1 | TGGCTCTAAGCTAGTGAACAAGCTTAACC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02306 | + | 66 | 94 | 0.000557 | 1 | CGGAAGACGGCAACAGGTCAAGTGAGGTG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03154 | + | 35 | 63 | 0.000563 | 1 | AATCATCCGGCCGCTGCCAATGTGAGTCA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00872 | + | 44 | 72 | 0.000603 | 1 | TGGCTCTCTGTGTCTATATAACTGACGTT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01400 | + | 39 | 67 | 0.000604 | 1 | AGGAGGTAGTCATAACGACATCGGTGATT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02966 | + | 51 | 79 | 0.000607 | 1 | TGTAACAACGCATGTCTATATCATATCAA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01373 | + | 43 | 71 | 0.000648 | 1 | TGGCTGACTGCAACAAAACCCCGTATGAC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03163 | + | 62 | 90 | 0.00065 | 1 | CGCCGGTCGGCTGCTACACTCCAGCTTAT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01333 | + | 69 | 97 | 0.000672 | 1 | TGAGGCCAAGAAGCTGGCCGGGATTGAGT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02094 | + | 33 | 61 | 0.000675 | 1 | TATTAAGAAGTAAATGTAATCGTAATAAT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02615 | + | 55 | 83 | 0.000697 | 1 | TACCACTCCGGAGGCGTAGCGGTTCGAGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00883 | + | 40 | 68 | 0.000727 | 1 | GATCGGTCGATCGCAGGATCGGTTGGCAT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00344 | + | 19 | 47 | 0.000736 | 1 | TATATTAAGGTAACGAGTAACCTTGATGT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00435 | + | 57 | 85 | 0.000739 | 1 | TATCTCAAAGCAACGCAATCGGCTTTCTA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03167 | + | 63 | 91 | 0.000754 | 1 | TAAATGTTGTCAACTATCTCGTTTTTAGG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03088 | + | 51 | 79 | 0.000757 | 1 | TGGACGTAAGCCGGACGCCCGGGTAAACT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00307 | + | 33 | 61 | 0.000802 | 1 | TACCGCACGACAGCAAGTAACCGAATTCC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01858 | + | 71 | 99 | 0.000815 | 1 | TGGCAGTAAGCAGGACGGCTACCTGTCGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02122 | + | 65 | 93 | 0.000825 | 1 | AGCCGGTTAGCAAATAGCACGTTCATACA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01961 | + | 19 | 47 | 0.000868 | 1 | TGTGGCTCGGGAGGCGGCCATCTGAGACG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00695 | + | 51 | 79 | 0.000916 | 1 | GGGCGTACCGTTCCAATATCAGTGAAATA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03405 | + | 12 | 40 | 0.000918 | 1 | TGATGGCCAGCAACCAAACCGCTGCGCAA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03537 | + | 16 | 44 | 0.00094 | 1 | TGCAGGCCAATGGAAGCCCACGTGCGCTG |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00675 | + | 14 | 42 | 0.000956 | 1 | TTGCGGCAAACACCAGGCGCACCGCGAGA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01014 | + | 53 | 81 | 0.000958 | 1 | TGCAATCATGGTGCTAGCATCGTGCTAGC |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_01262 | + | 2 | 30 | 0.000983 | 1 | GGCAAGATCACAAAAATCCATGTCTTAGT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03293 | + | 33 | 61 | 0.000987 | 1 | GAACTCAGTGCAAGAACGCACGCGAAAAA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_04058 | + | 47 | 75 | 0.000989 | 1 | TATCTCCAAATTACACTCCACGGTCAGCT |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_02409 | + | 51 | 79 | 0.000989 | 1 | CGTGTTACAGTAGCTCCACAGCTGAGCTA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_00602 | + | 33 | 61 | 0.000993 | 1 | TGACAGCAGTCAGCCGGGTCCCTGGATTA |
TRWCWSWAGRCAKMAAGACHMGTTWTAWA | MEME-3 | MNBBKBOB_03587 | + | 34 | 62 | 0.000996 | 1 | AGTCATCCGGCTACAGTAACCGATGTAGT |
Command line:
fimo --norc -motif TRWCWSWAGRCAKMAAGACHMGTTWTAWA -thresh 0.001 ./meme_out/meme.txt test.fasta
Settings:
output_directory = fimo_out | MEME file name = ./meme_out/meme.txt | sequence file name = test.fasta |
background file name = --nrdb-- | alphabet = DNA | max stored scores = 100000 |
allow clobber = true | compute q-values = true | parse genomic coord. = false |
text only = false | scan both strands = false | max strand = false |
threshold type = p-value | output theshold = 0.001 | pseudocount = 0.1 |
alpha = 1 | verbosity = 2 |
This information can be useful in the event you wish to report a problem with the FIMO software.